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#Please insert up references in the next lines (line starts with keyword UP)
UP arb.hlp
UP arb.pdf
#Please insert subtopic references (line starts with keyword SUB)
SUB trees.hlp
SUB helix.hlp
SUB props_nds.hlp
SUB pt_server.hlp
SUB extended.hlp
SUB species.hlp
SUB selected.hlp
# Hypertext links in helptext can be added like this: LINK{ref.hlp|http://add|bla@domain}
#************* Title of helpfile !! and start of real helpfile ********
TITLE Glossary
SECTION What do we mean if we talk about ...
ALIGNMENT
Subdatabase containing homologous sequences (different
'alignments' can be stored along with the species information).
See LINK{alignment.hlp} for more information.
ACI
ARB Command Interpreter. ACI is a simple programing language
for calculating special species information (eg. G+C Content..)
See LINK{aci.hlp}.
EDGE
Branch within a tree defined by nodes
FIELD
Container for 'species' associated information
MARKED SPECIES
Marking of 'species' defines the datasubset which is analyzed
by the ARB tools.
See LINK{mark.hlp}.
NAMES
There are two kinds of name fields (for species, genes, etc.).
- name
Identifier for 'species' entries.
Should be generated automatically using
the name server.
- full_name
User defined full name of the species,...
NDS
Node Display Setup: defines information which is displayed at
tree nodes.
NODE
Internal: connects branches of a tree
Terminal: free end of branches representing 'species'
PT_SERVER
Server using a special form of the ARB database for rapid
similarity searching (automated alignment, probe design/check)
SAI
Sequence Associated Information
SELECTED SPECIES
The 'selected species' is that ONE species which has been selected
by using any of the following actions
- ARB_NTREE/Search + click onto one search result
- ARB_MERGE/Transfer species + click onto one search result
(here there is one selected species in each of the two involved DBs)
- clicking on the species name in the tree display in ARB_NT
- placing the cursor into the sequence of a species in ARB_EDIT4
The currently selected species will be displayed in the 'Species info window'
SPECIES
Database entry containing a sequence and associated information.
Not necessarily consistent with a taxonomic species
SRT
Search and Replace Tool allows to search substrings in a string
and replace them by another substring (see LINK{srt.hlp}).
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